Soil metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA366859 | ENA |
REPOSITORIES: ENA
Dataset's files
primary
| Action | DRS | |||
|---|---|---|---|---|
| SRR5252277_1.fastq.gz | Fastqsanger.gz | |||
| SRR5252277_2.fastq.gz | Fastqsanger.gz |
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Project description:It is well known that rhizosphere microbiomes differ from those of surrounding soil, and yet we know little about how these root-associated microbial communities change through the growing season and between seasons. We analyzed the response of soil bacteria to roots of the common annual grass Avena fatua over two growing seasons using high-throughput sequencing of 16S rRNA genes. Over the two periods of growth, the rhizosphere bacterial communities followed consistent successional patterns as plants grew, although the starting communities were distinct. Succession in the rhizosphere was characterized by a significant decrease in both taxonomic and phylogenetic diversity relative to background soil communities, driven by reductions in both richness and evenness of the bacterial communities. Plant roots selectively stimulated the relative abundance of Alphaproteobacteria, Betaproteobacteria, and Bacteroidetes but reduced the abundance of Acidobacteria, Actinobacteria, and Firmicutes. Taxa that increased in relative abundance in the rhizosphere soil displayed phylogenetic clustering, suggesting some conservation and an evolutionary basis for the response of complex soil bacterial communities to the presence of plant roots. The reproducibility of rhizosphere succession and the apparent phylogenetic conservation of rhizosphere competence traits suggest adaptation of the indigenous bacterial community to this common grass over the many decades of its presence.We document the successional patterns of rhizosphere bacterial communities associated with a "wild" annual grass, Avena fatua, which is commonly a dominant plant in Mediterranean-type annual grasslands around the world; the plant was grown in its grassland soil. Most studies documenting rhizosphere microbiomes address "domesticated" plants growing in soils to which they are introduced. Rhizosphere bacterial communities exhibited a pattern of temporal succession that was consistent and repeatable over two growing seasons. There are few studies assessing the reproducibility over multiple seasons. Through the growing season, the rhizosphere community became progressively less diverse, likely reflecting root homogenization of soil microniches. Phylogenetic clustering of the rhizosphere dynamic taxa suggests evolutionary adaptation to Avena roots. The reproducibility of rhizosphere succession and the apparent phylogenetic conservation of rhizosphere competence traits suggest adaptation of the indigenous bacterial community to this common grass over the many decades of its presence.
1000-01-01 | S-EPMC4526712 | BioStudies
Project description:Feedbacks between plants and soil biota are increasingly identified as key determinants of species abundance patterns within plant communities. However, our understanding of how plant-soil feedbacks (PSFs) may contribute to invasions is limited by our understanding of how feedbacks may shift in the light of other ecological processes. Here we assess how the strength of PSFs may shift as soil microbial communities change along a gradient of soil nitrogen (N) availability and how these dynamics may be further altered by the presence of a competitor. We conducted a greenhouse experiment where we grew native Stipa pulchra and exotic Avena fatua, alone and in competition, in soils inoculated with conspecific and heterospecific soil microbial communities conditioned in low, ambient and high N environments. Stipa pulchra decreased in heterospecific soil and in the presence of a competitor, while the performance of the exotic A. fatua shifted with soil microbial communities from altered N environments. Moreover, competition and soil microbial communities from the high N environment eliminated the positive PSFs of Stipa. Our results highlight the importance of examining how individual PSFs may interact in a broader community context and contribute to the establishment, spread and dominance of invaders.
2014-01-01 | S-EPMC4287689 | BioStudies
Project description:Avena fatua rhizosphere microbial communities - H2_Bulk_Litter_12 metatranscriptome
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Project description:Avena fatua rhizosphere microbial communities - H3_Rhizo_Litter_15 metatranscriptome
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